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authorJohannes Ranke <jranke@uni-bremen.de>2021-04-21 16:40:50 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2021-04-21 16:40:50 +0200
commit9907f17aa98bddfe60e82a71c70a2fea914a02f7 (patch)
tree4d5d959cdd19f32068bae406372df4b8a8f59fd6 /docs/reference
parent34d1c5f23edfb60548bc5a9dd99c2f3af92acef1 (diff)
parentc74b79c983fe9fc872bac1262040e82f16049477 (diff)
Merge branch 'master' into saemix
Diffstat (limited to 'docs/reference')
-rw-r--r--docs/reference/D24_2014.html2
-rw-r--r--docs/reference/Extract.mmkin.html2
-rw-r--r--docs/reference/Rplot001.pngbin27746 -> 27637 bytes
-rw-r--r--docs/reference/Rplot003.pngbin15333 -> 33192 bytes
-rw-r--r--docs/reference/Rplot004.pngbin10647 -> 23509 bytes
-rw-r--r--docs/reference/Rplot005.pngbin19233 -> 23509 bytes
-rw-r--r--docs/reference/Rplot006.pngbin24545 -> 22129 bytes
-rw-r--r--docs/reference/Rplot007.pngbin24992 -> 25211 bytes
-rw-r--r--docs/reference/add_err-1.pngbin108676 -> 109666 bytes
-rw-r--r--docs/reference/add_err-2.pngbin63336 -> 63614 bytes
-rw-r--r--docs/reference/add_err-3.pngbin58909 -> 59316 bytes
-rw-r--r--docs/reference/add_err.html2
-rw-r--r--docs/reference/confint.mkinfit.html6
-rw-r--r--docs/reference/dimethenamid_2018.html2
-rw-r--r--docs/reference/experimental_data_for_UBA-1.pngbin102212 -> 102839 bytes
-rw-r--r--docs/reference/experimental_data_for_UBA.html2
-rw-r--r--docs/reference/f_time_norm_focus.html2
-rw-r--r--docs/reference/focus_soil_moisture.html2
-rw-r--r--docs/reference/logLik.mkinfit.html2
-rw-r--r--docs/reference/mccall81_245T-1.pngbin62537 -> 62564 bytes
-rw-r--r--docs/reference/mccall81_245T.html2
-rw-r--r--docs/reference/mixed-1.pngbin219866 -> 219876 bytes
-rw-r--r--docs/reference/mixed.html2
-rw-r--r--docs/reference/mkinds.html2
-rw-r--r--docs/reference/mkindsg.html2
-rw-r--r--docs/reference/mkinfit-1.pngbin65835 -> 66042 bytes
-rw-r--r--docs/reference/mkinfit.html28
-rw-r--r--docs/reference/mkinmod.html6
-rw-r--r--docs/reference/mkinpredict.html6
-rw-r--r--docs/reference/mkinresplot-1.pngbin23819 -> 23907 bytes
-rw-r--r--docs/reference/mkinresplot.html2
-rw-r--r--docs/reference/mmkin-1.pngbin110459 -> 110844 bytes
-rw-r--r--docs/reference/mmkin-2.pngbin107057 -> 107612 bytes
-rw-r--r--docs/reference/mmkin-3.pngbin96062 -> 96248 bytes
-rw-r--r--docs/reference/mmkin-4.pngbin67191 -> 66653 bytes
-rw-r--r--docs/reference/mmkin-5.pngbin64880 -> 65046 bytes
-rw-r--r--docs/reference/mmkin.html11
-rw-r--r--docs/reference/nlme-1.pngbin70133 -> 70244 bytes
-rw-r--r--docs/reference/nlme-2.pngbin94031 -> 94239 bytes
-rw-r--r--docs/reference/nlme.html2
-rw-r--r--docs/reference/nlme.mmkin-1.pngbin124677 -> 124827 bytes
-rw-r--r--docs/reference/nlme.mmkin-2.pngbin169523 -> 169698 bytes
-rw-r--r--docs/reference/nlme.mmkin-3.pngbin172692 -> 172809 bytes
-rw-r--r--docs/reference/nlme.mmkin.html2
-rw-r--r--docs/reference/parms.html2
-rw-r--r--docs/reference/plot.mixed.mmkin-1.pngbin85433 -> 84976 bytes
-rw-r--r--docs/reference/plot.mkinfit-1.pngbin53151 -> 53333 bytes
-rw-r--r--docs/reference/plot.mkinfit-2.pngbin73254 -> 72971 bytes
-rw-r--r--docs/reference/plot.mkinfit-3.pngbin67810 -> 67908 bytes
-rw-r--r--docs/reference/plot.mkinfit-4.pngbin72295 -> 72505 bytes
-rw-r--r--docs/reference/plot.mkinfit-5.pngbin66560 -> 66973 bytes
-rw-r--r--docs/reference/plot.mkinfit-6.pngbin72717 -> 72699 bytes
-rw-r--r--docs/reference/plot.mkinfit-7.pngbin73553 -> 74240 bytes
-rw-r--r--docs/reference/plot.mkinfit.html2
-rw-r--r--docs/reference/plot.mmkin-1.pngbin48997 -> 49701 bytes
-rw-r--r--docs/reference/plot.mmkin-2.pngbin49376 -> 50025 bytes
-rw-r--r--docs/reference/plot.mmkin-3.pngbin46202 -> 46360 bytes
-rw-r--r--docs/reference/plot.mmkin-4.pngbin33057 -> 33389 bytes
-rw-r--r--docs/reference/plot.mmkin-5.pngbin57372 -> 58129 bytes
-rw-r--r--docs/reference/plot.mmkin.html2
-rw-r--r--docs/reference/reexports.html2
-rw-r--r--docs/reference/sigma_twocomp-1.pngbin43910 -> 43766 bytes
-rw-r--r--docs/reference/sigma_twocomp.html2
-rw-r--r--docs/reference/summary.nlme.mmkin.html12
-rw-r--r--docs/reference/transform_odeparms.html2
65 files changed, 56 insertions, 55 deletions
diff --git a/docs/reference/D24_2014.html b/docs/reference/D24_2014.html
index e2d47f1b..c59bfad6 100644
--- a/docs/reference/D24_2014.html
+++ b/docs/reference/D24_2014.html
@@ -77,7 +77,7 @@ constrained by data protection regulations." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html
index 5a99cf1b..b1c73ba5 100644
--- a/docs/reference/Extract.mmkin.html
+++ b/docs/reference/Extract.mmkin.html
@@ -72,7 +72,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/Rplot001.png b/docs/reference/Rplot001.png
index 1cbcb153..49fb9af1 100644
--- a/docs/reference/Rplot001.png
+++ b/docs/reference/Rplot001.png
Binary files differ
diff --git a/docs/reference/Rplot003.png b/docs/reference/Rplot003.png
index 19198739..eba202e9 100644
--- a/docs/reference/Rplot003.png
+++ b/docs/reference/Rplot003.png
Binary files differ
diff --git a/docs/reference/Rplot004.png b/docs/reference/Rplot004.png
index 1028a9c4..a4f878c8 100644
--- a/docs/reference/Rplot004.png
+++ b/docs/reference/Rplot004.png
Binary files differ
diff --git a/docs/reference/Rplot005.png b/docs/reference/Rplot005.png
index aa844051..a4f878c8 100644
--- a/docs/reference/Rplot005.png
+++ b/docs/reference/Rplot005.png
Binary files differ
diff --git a/docs/reference/Rplot006.png b/docs/reference/Rplot006.png
index 81525882..ff8a5d83 100644
--- a/docs/reference/Rplot006.png
+++ b/docs/reference/Rplot006.png
Binary files differ
diff --git a/docs/reference/Rplot007.png b/docs/reference/Rplot007.png
index 10b7455a..3405a171 100644
--- a/docs/reference/Rplot007.png
+++ b/docs/reference/Rplot007.png
Binary files differ
diff --git a/docs/reference/add_err-1.png b/docs/reference/add_err-1.png
index 9ba106db..70118923 100644
--- a/docs/reference/add_err-1.png
+++ b/docs/reference/add_err-1.png
Binary files differ
diff --git a/docs/reference/add_err-2.png b/docs/reference/add_err-2.png
index 3088c40e..69b820c2 100644
--- a/docs/reference/add_err-2.png
+++ b/docs/reference/add_err-2.png
Binary files differ
diff --git a/docs/reference/add_err-3.png b/docs/reference/add_err-3.png
index 493a761a..1de78fa7 100644
--- a/docs/reference/add_err-3.png
+++ b/docs/reference/add_err-3.png
Binary files differ
diff --git a/docs/reference/add_err.html b/docs/reference/add_err.html
index 6fbecd14..18ca517e 100644
--- a/docs/reference/add_err.html
+++ b/docs/reference/add_err.html
@@ -74,7 +74,7 @@ may depend on the predicted value and is specified as a standard deviation." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/confint.mkinfit.html b/docs/reference/confint.mkinfit.html
index 06e78459..e81e0c7b 100644
--- a/docs/reference/confint.mkinfit.html
+++ b/docs/reference/confint.mkinfit.html
@@ -79,7 +79,7 @@ method of Venzon and Moolgavkar (1988)." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -285,13 +285,13 @@ Profile-Likelihood Based Confidence Intervals, Applied Statistics, 37,
<span class='va'>f_d_1</span> <span class='op'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span><span class='op'>(</span><span class='va'>SFO_SFO</span>, <span class='fu'><a href='https://rdrr.io/r/base/subset.html'>subset</a></span><span class='op'>(</span><span class='va'>FOCUS_2006_D</span>, <span class='va'>value</span> <span class='op'>!=</span> <span class='fl'>0</span><span class='op'>)</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
<span class='fu'><a href='https://rdrr.io/r/base/system.time.html'>system.time</a></span><span class='op'>(</span><span class='va'>ci_profile</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/stats/confint.html'>confint</a></span><span class='op'>(</span><span class='va'>f_d_1</span>, method <span class='op'>=</span> <span class='st'>"profile"</span>, cores <span class='op'>=</span> <span class='fl'>1</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span><span class='op'>)</span>
</div><div class='output co'>#&gt; user system elapsed
-#&gt; 4.255 1.029 3.937 </div><div class='input'><span class='co'># Using more cores does not save much time here, as parent_0 takes up most of the time</span>
+#&gt; 3.871 0.000 3.871 </div><div class='input'><span class='co'># Using more cores does not save much time here, as parent_0 takes up most of the time</span>
<span class='co'># If we additionally exclude parent_0 (the confidence of which is often of</span>
<span class='co'># minor interest), we get a nice performance improvement if we use at least 4 cores</span>
<span class='fu'><a href='https://rdrr.io/r/base/system.time.html'>system.time</a></span><span class='op'>(</span><span class='va'>ci_profile_no_parent_0</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/stats/confint.html'>confint</a></span><span class='op'>(</span><span class='va'>f_d_1</span>, method <span class='op'>=</span> <span class='st'>"profile"</span>,
<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='st'>"k_parent_sink"</span>, <span class='st'>"k_parent_m1"</span>, <span class='st'>"k_m1_sink"</span>, <span class='st'>"sigma"</span><span class='op'>)</span>, cores <span class='op'>=</span> <span class='va'>n_cores</span><span class='op'>)</span><span class='op'>)</span>
</div><div class='output co'>#&gt; <span class='message'>Profiling the likelihood</span></div><div class='output co'>#&gt; user system elapsed
-#&gt; 1.469 0.092 0.911 </div><div class='input'><span class='va'>ci_profile</span>
+#&gt; 1.484 0.116 0.923 </div><div class='input'><span class='va'>ci_profile</span>
</div><div class='output co'>#&gt; 2.5% 97.5%
#&gt; parent_0 96.456003640 1.027703e+02
#&gt; k_parent_sink 0.040762501 5.549764e-02
diff --git a/docs/reference/dimethenamid_2018.html b/docs/reference/dimethenamid_2018.html
index 6845f74f..3b6ae721 100644
--- a/docs/reference/dimethenamid_2018.html
+++ b/docs/reference/dimethenamid_2018.html
@@ -77,7 +77,7 @@ constrained by data protection regulations." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/experimental_data_for_UBA-1.png b/docs/reference/experimental_data_for_UBA-1.png
index 33946ded..5527c07f 100644
--- a/docs/reference/experimental_data_for_UBA-1.png
+++ b/docs/reference/experimental_data_for_UBA-1.png
Binary files differ
diff --git a/docs/reference/experimental_data_for_UBA.html b/docs/reference/experimental_data_for_UBA.html
index 77f75678..4da8d6c3 100644
--- a/docs/reference/experimental_data_for_UBA.html
+++ b/docs/reference/experimental_data_for_UBA.html
@@ -100,7 +100,7 @@ Dataset 12 is from the Renewal Assessment Report (RAR) for thifensulfuron-methyl
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/f_time_norm_focus.html b/docs/reference/f_time_norm_focus.html
index aa494b27..a0899ac8 100644
--- a/docs/reference/f_time_norm_focus.html
+++ b/docs/reference/f_time_norm_focus.html
@@ -73,7 +73,7 @@ in Appendix 8 to the FOCUS kinetics guidance (FOCUS 2014, p. 369)." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/focus_soil_moisture.html b/docs/reference/focus_soil_moisture.html
index 61f235db..bbacc554 100644
--- a/docs/reference/focus_soil_moisture.html
+++ b/docs/reference/focus_soil_moisture.html
@@ -73,7 +73,7 @@ corresponds to pF2, MWHC to pF 1 and 1/3 bar to pF 2.5." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/logLik.mkinfit.html b/docs/reference/logLik.mkinfit.html
index 9e5b4069..83fb4e48 100644
--- a/docs/reference/logLik.mkinfit.html
+++ b/docs/reference/logLik.mkinfit.html
@@ -76,7 +76,7 @@ the error model." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mccall81_245T-1.png b/docs/reference/mccall81_245T-1.png
index 91fe060e..478462ae 100644
--- a/docs/reference/mccall81_245T-1.png
+++ b/docs/reference/mccall81_245T-1.png
Binary files differ
diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html
index b7dca4a7..4f8d3fa0 100644
--- a/docs/reference/mccall81_245T.html
+++ b/docs/reference/mccall81_245T.html
@@ -74,7 +74,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mixed-1.png b/docs/reference/mixed-1.png
index 28a376f4..b9454c86 100644
--- a/docs/reference/mixed-1.png
+++ b/docs/reference/mixed-1.png
Binary files differ
diff --git a/docs/reference/mixed.html b/docs/reference/mixed.html
index 23d955e3..b4f8db16 100644
--- a/docs/reference/mixed.html
+++ b/docs/reference/mixed.html
@@ -72,7 +72,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mkinds.html b/docs/reference/mkinds.html
index 5111a9e0..fe89012c 100644
--- a/docs/reference/mkinds.html
+++ b/docs/reference/mkinds.html
@@ -75,7 +75,7 @@ provided by this package come as mkinds objects nevertheless." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mkindsg.html b/docs/reference/mkindsg.html
index 003e5e8f..a9686e4c 100644
--- a/docs/reference/mkindsg.html
+++ b/docs/reference/mkindsg.html
@@ -75,7 +75,7 @@ dataset if no data are supplied." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mkinfit-1.png b/docs/reference/mkinfit-1.png
index de2a90a9..e1d0f2f4 100644
--- a/docs/reference/mkinfit-1.png
+++ b/docs/reference/mkinfit-1.png
Binary files differ
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html
index 180f2ee7..2c162e49 100644
--- a/docs/reference/mkinfit.html
+++ b/docs/reference/mkinfit.html
@@ -80,7 +80,7 @@ likelihood function." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -431,10 +431,10 @@ doi: <a href='https://doi.org/10.3390/environments6120124'>10.3390/environments6
<span class='co'># Use shorthand notation for parent only degradation</span>
<span class='va'>fit</span> <span class='op'>&lt;-</span> <span class='fu'>mkinfit</span><span class='op'>(</span><span class='st'>"FOMC"</span>, <span class='va'>FOCUS_2006_C</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
<span class='fu'><a href='https://rdrr.io/r/base/summary.html'>summary</a></span><span class='op'>(</span><span class='va'>fit</span><span class='op'>)</span>
-</div><div class='output co'>#&gt; mkin version used for fitting: 1.0.3
-#&gt; R version used for fitting: 4.0.3
-#&gt; Date of fit: Mon Feb 15 13:43:26 2021
-#&gt; Date of summary: Mon Feb 15 13:43:26 2021
+</div><div class='output co'>#&gt; mkin version used for fitting: 1.0.4
+#&gt; R version used for fitting: 4.0.4
+#&gt; Date of fit: Wed Mar 31 19:15:41 2021
+#&gt; Date of summary: Wed Mar 31 19:15:41 2021
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
@@ -574,10 +574,10 @@ doi: <a href='https://doi.org/10.3390/environments6120124'>10.3390/environments6
analytical <span class='op'>=</span> <span class='fu'>mkinfit</span><span class='op'>(</span><span class='va'>SFO_SFO</span>, <span class='va'>FOCUS_D</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span>, error_model <span class='op'>=</span> <span class='st'>"tc"</span>,
solution_type <span class='op'>=</span> <span class='st'>"analytical"</span><span class='op'>)</span><span class='op'>)</span>
<span class='op'>}</span>
-</div><div class='output co'>#&gt; test relative elapsed
-#&gt; 3 analytical 1.000 0.550
-#&gt; 1 deSolve_compiled 1.731 0.952
-#&gt; 2 eigen 2.662 1.464</div><div class='input'><span class='co'># }</span>
+</div><div class='output co'>#&gt; <span class='message'>Loading required package: rbenchmark</span></div><div class='output co'>#&gt; test relative elapsed
+#&gt; 3 analytical 1.000 0.547
+#&gt; 1 deSolve_compiled 1.717 0.939
+#&gt; 2 eigen 2.644 1.446</div><div class='input'><span class='co'># }</span>
<span class='co'># Use stepwise fitting, using optimised parameters from parent only fit, FOMC-SFO</span>
<span class='co'># \dontrun{</span>
@@ -598,10 +598,10 @@ doi: <a href='https://doi.org/10.3390/environments6120124'>10.3390/environments6
#&gt; 2 6 -64.983 -1 0.3075 0.5792</div><div class='input'><span class='co'># Also, the missing standard error for log_beta and the t-tests for alpha</span>
<span class='co'># and beta indicate overparameterisation</span>
<span class='fu'><a href='https://rdrr.io/r/base/summary.html'>summary</a></span><span class='op'>(</span><span class='va'>fit.FOMC_SFO.tc</span>, data <span class='op'>=</span> <span class='cn'>FALSE</span><span class='op'>)</span>
-</div><div class='output co'>#&gt; <span class='warning'>Warning: NaNs produced</span></div><div class='output co'>#&gt; <span class='warning'>Warning: NaNs produced</span></div><div class='output co'>#&gt; <span class='warning'>Warning: diag(.) had 0 or NA entries; non-finite result is doubtful</span></div><div class='output co'>#&gt; mkin version used for fitting: 1.0.3
-#&gt; R version used for fitting: 4.0.3
-#&gt; Date of fit: Mon Feb 15 13:43:38 2021
-#&gt; Date of summary: Mon Feb 15 13:43:38 2021
+</div><div class='output co'>#&gt; <span class='warning'>Warning: NaNs produced</span></div><div class='output co'>#&gt; <span class='warning'>Warning: NaNs produced</span></div><div class='output co'>#&gt; <span class='warning'>Warning: diag(.) had 0 or NA entries; non-finite result is doubtful</span></div><div class='output co'>#&gt; mkin version used for fitting: 1.0.4
+#&gt; R version used for fitting: 4.0.4
+#&gt; Date of fit: Wed Mar 31 19:15:53 2021
+#&gt; Date of summary: Wed Mar 31 19:15:53 2021
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
@@ -610,7 +610,7 @@ doi: <a href='https://doi.org/10.3390/environments6120124'>10.3390/environments6
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted using 3729 model solutions performed in 2.802 s
+#&gt; Fitted using 3729 model solutions performed in 2.798 s
#&gt;
#&gt; Error model: Two-component variance function
#&gt;
diff --git a/docs/reference/mkinmod.html b/docs/reference/mkinmod.html
index 4ce9468a..1e8ad60d 100644
--- a/docs/reference/mkinmod.html
+++ b/docs/reference/mkinmod.html
@@ -78,7 +78,7 @@ mkinmod." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -348,7 +348,7 @@ Evaluating and Calculating Degradation Kinetics in Environmental Media</p>
parent <span class='op'>=</span> <span class='fu'>mkinsub</span><span class='op'>(</span><span class='st'>"SFO"</span>, <span class='st'>"m1"</span>, full_name <span class='op'>=</span> <span class='st'>"Test compound"</span><span class='op'>)</span>,
m1 <span class='op'>=</span> <span class='fu'>mkinsub</span><span class='op'>(</span><span class='st'>"SFO"</span>, full_name <span class='op'>=</span> <span class='st'>"Metabolite M1"</span><span class='op'>)</span>,
name <span class='op'>=</span> <span class='st'>"SFO_SFO"</span>, dll_dir <span class='op'>=</span> <span class='va'>DLL_dir</span>, unload <span class='op'>=</span> <span class='cn'>TRUE</span>, overwrite <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
-</div><div class='output co'>#&gt; <span class='message'>Copied DLL from /tmp/RtmpiJ2M4Z/filee097a4a94a921.so to /home/jranke/.local/share/mkin/SFO_SFO.so</span></div><div class='input'><span class='co'># Now we can save the model and restore it in a new session</span>
+</div><div class='output co'>#&gt; <span class='message'>Copied DLL from /tmp/Rtmp17EVw2/file269cfd5cc541a9.so to /home/jranke/.local/share/mkin/SFO_SFO.so</span></div><div class='input'><span class='co'># Now we can save the model and restore it in a new session</span>
<span class='fu'><a href='https://rdrr.io/r/base/readRDS.html'>saveRDS</a></span><span class='op'>(</span><span class='va'>SFO_SFO.2</span>, file <span class='op'>=</span> <span class='st'>"~/SFO_SFO.rds"</span><span class='op'>)</span>
<span class='co'># Terminate the R session here if you would like to check, and then do</span>
<span class='kw'><a href='https://rdrr.io/r/base/library.html'>library</a></span><span class='op'>(</span><span class='va'><a href='https://pkgdown.jrwb.de/mkin/'>mkin</a></span><span class='op'>)</span>
@@ -397,7 +397,7 @@ Evaluating and Calculating Degradation Kinetics in Environmental Media</p>
#&gt; })
#&gt; return(predicted)
#&gt; }
-#&gt; &lt;environment: 0x55555b0c2760&gt;</div><div class='input'>
+#&gt; &lt;environment: 0x55555c17ae90&gt;</div><div class='input'>
<span class='co'># If we have several parallel metabolites</span>
<span class='co'># (compare tests/testthat/test_synthetic_data_for_UBA_2014.R)</span>
<span class='va'>m_synth_DFOP_par</span> <span class='op'>&lt;-</span> <span class='fu'>mkinmod</span><span class='op'>(</span>
diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html
index 25e26419..5775ba62 100644
--- a/docs/reference/mkinpredict.html
+++ b/docs/reference/mkinpredict.html
@@ -74,7 +74,7 @@ kinetic parameters and initial values for the state variables." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -410,8 +410,8 @@ as these always return mapped output.</p></td>
</div><div class='output co'>#&gt; test relative elapsed
#&gt; 2 deSolve_compiled 1.0 0.005
#&gt; 4 analytical 1.0 0.005
-#&gt; 1 eigen 4.4 0.022
-#&gt; 3 deSolve 47.0 0.235</div><div class='input'>
+#&gt; 1 eigen 4.0 0.020
+#&gt; 3 deSolve 46.2 0.231</div><div class='input'>
<span class='co'># \dontrun{</span>
<span class='co'># Predict from a fitted model</span>
<span class='va'>f</span> <span class='op'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span><span class='op'>(</span><span class='va'>SFO_SFO</span>, <span class='va'>FOCUS_2006_C</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
diff --git a/docs/reference/mkinresplot-1.png b/docs/reference/mkinresplot-1.png
index ffd34f6f..963aa5b7 100644
--- a/docs/reference/mkinresplot-1.png
+++ b/docs/reference/mkinresplot-1.png
Binary files differ
diff --git a/docs/reference/mkinresplot.html b/docs/reference/mkinresplot.html
index 04ff15b8..fe3150e7 100644
--- a/docs/reference/mkinresplot.html
+++ b/docs/reference/mkinresplot.html
@@ -75,7 +75,7 @@ argument show_residuals = TRUE." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/mmkin-1.png b/docs/reference/mmkin-1.png
index 0db3379f..f6bb2131 100644
--- a/docs/reference/mmkin-1.png
+++ b/docs/reference/mmkin-1.png
Binary files differ
diff --git a/docs/reference/mmkin-2.png b/docs/reference/mmkin-2.png
index 024a9892..50102a3d 100644
--- a/docs/reference/mmkin-2.png
+++ b/docs/reference/mmkin-2.png
Binary files differ
diff --git a/docs/reference/mmkin-3.png b/docs/reference/mmkin-3.png
index a23d7cb9..9aa7f0db 100644
--- a/docs/reference/mmkin-3.png
+++ b/docs/reference/mmkin-3.png
Binary files differ
diff --git a/docs/reference/mmkin-4.png b/docs/reference/mmkin-4.png
index 89975db5..f4f413d1 100644
--- a/docs/reference/mmkin-4.png
+++ b/docs/reference/mmkin-4.png
Binary files differ
diff --git a/docs/reference/mmkin-5.png b/docs/reference/mmkin-5.png
index a2f34983..48ab2c50 100644
--- a/docs/reference/mmkin-5.png
+++ b/docs/reference/mmkin-5.png
Binary files differ
diff --git a/docs/reference/mmkin.html b/docs/reference/mmkin.html
index c9800fe7..caba300e 100644
--- a/docs/reference/mmkin.html
+++ b/docs/reference/mmkin.html
@@ -75,7 +75,7 @@ datasets specified in its first two arguments." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -155,7 +155,7 @@ datasets specified in its first two arguments.</p>
<pre class="usage"><span class='fu'>mmkin</span><span class='op'>(</span>
models <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='st'>"SFO"</span>, <span class='st'>"FOMC"</span>, <span class='st'>"DFOP"</span><span class='op'>)</span>,
<span class='va'>datasets</span>,
- cores <span class='op'>=</span> <span class='fu'>parallel</span><span class='fu'>::</span><span class='fu'><a href='https://rdrr.io/r/parallel/detectCores.html'>detectCores</a></span><span class='op'>(</span><span class='op'>)</span>,
+ cores <span class='op'>=</span> <span class='kw'>if</span> <span class='op'>(</span><span class='fu'><a href='https://rdrr.io/r/base/Sys.info.html'>Sys.info</a></span><span class='op'>(</span><span class='op'>)</span><span class='op'>[</span><span class='st'>"sysname"</span><span class='op'>]</span> <span class='op'>==</span> <span class='st'>"Windows"</span><span class='op'>)</span> <span class='fl'>1</span> <span class='kw'>else</span> <span class='fu'>parallel</span><span class='fu'>::</span><span class='fu'><a href='https://rdrr.io/r/parallel/detectCores.html'>detectCores</a></span><span class='op'>(</span><span class='op'>)</span>,
cluster <span class='op'>=</span> <span class='cn'>NULL</span>,
<span class='va'>...</span>
<span class='op'>)</span>
@@ -183,7 +183,8 @@ data for <code><a href='mkinfit.html'>mkinfit</a></code>.</p></td>
is only used when the <code>cluster</code> argument is <code>NULL</code>. On Windows
machines, cores &gt; 1 is not supported, you need to use the <code>cluster</code>
argument to use multiple logical processors. Per default, all cores
-detected by <code><a href='https://rdrr.io/r/parallel/detectCores.html'>parallel::detectCores()</a></code> are used.</p></td>
+detected by <code><a href='https://rdrr.io/r/parallel/detectCores.html'>parallel::detectCores()</a></code> are used, except on Windows where
+the default is 1.</p></td>
</tr>
<tr>
<th>cluster</th>
@@ -234,9 +235,9 @@ plotting.</p></div>
<span class='va'>time_default</span>
</div><div class='output co'>#&gt; user system elapsed
-#&gt; 4.630 0.415 1.717 </div><div class='input'><span class='va'>time_1</span>
+#&gt; 4.656 0.403 1.734 </div><div class='input'><span class='va'>time_1</span>
</div><div class='output co'>#&gt; user system elapsed
-#&gt; 5.694 0.000 5.694 </div><div class='input'>
+#&gt; 5.627 0.004 5.631 </div><div class='input'>
<span class='fu'><a href='endpoints.html'>endpoints</a></span><span class='op'>(</span><span class='va'>fits.0</span><span class='op'>[[</span><span class='st'>"SFO_lin"</span>, <span class='fl'>2</span><span class='op'>]</span><span class='op'>]</span><span class='op'>)</span>
</div><div class='output co'>#&gt; $ff
#&gt; parent_M1 parent_sink M1_M2 M1_sink
diff --git a/docs/reference/nlme-1.png b/docs/reference/nlme-1.png
index 728cc557..c41adc27 100644
--- a/docs/reference/nlme-1.png
+++ b/docs/reference/nlme-1.png
Binary files differ
diff --git a/docs/reference/nlme-2.png b/docs/reference/nlme-2.png
index e8167455..c0d8e857 100644
--- a/docs/reference/nlme-2.png
+++ b/docs/reference/nlme-2.png
Binary files differ
diff --git a/docs/reference/nlme.html b/docs/reference/nlme.html
index 7b0c6a97..c6b43aab 100644
--- a/docs/reference/nlme.html
+++ b/docs/reference/nlme.html
@@ -75,7 +75,7 @@ datasets. They are used internally by the nlme.mmkin() method." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/nlme.mmkin-1.png b/docs/reference/nlme.mmkin-1.png
index 9186c135..90ede880 100644
--- a/docs/reference/nlme.mmkin-1.png
+++ b/docs/reference/nlme.mmkin-1.png
Binary files differ
diff --git a/docs/reference/nlme.mmkin-2.png b/docs/reference/nlme.mmkin-2.png
index d395fe02..0d140fd1 100644
--- a/docs/reference/nlme.mmkin-2.png
+++ b/docs/reference/nlme.mmkin-2.png
Binary files differ
diff --git a/docs/reference/nlme.mmkin-3.png b/docs/reference/nlme.mmkin-3.png
index 40518a59..8a60b52b 100644
--- a/docs/reference/nlme.mmkin-3.png
+++ b/docs/reference/nlme.mmkin-3.png
Binary files differ
diff --git a/docs/reference/nlme.mmkin.html b/docs/reference/nlme.mmkin.html
index 189e34ef..03448606 100644
--- a/docs/reference/nlme.mmkin.html
+++ b/docs/reference/nlme.mmkin.html
@@ -74,7 +74,7 @@ have been obtained by fitting the same model to a list of datasets." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/parms.html b/docs/reference/parms.html
index e45d6a5c..b4346b13 100644
--- a/docs/reference/parms.html
+++ b/docs/reference/parms.html
@@ -74,7 +74,7 @@ considering the error structure that was assumed for the fit." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/plot.mixed.mmkin-1.png b/docs/reference/plot.mixed.mmkin-1.png
index 2224d96e..65660abe 100644
--- a/docs/reference/plot.mixed.mmkin-1.png
+++ b/docs/reference/plot.mixed.mmkin-1.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-1.png b/docs/reference/plot.mkinfit-1.png
index e5da9f1c..54e5c46f 100644
--- a/docs/reference/plot.mkinfit-1.png
+++ b/docs/reference/plot.mkinfit-1.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-2.png b/docs/reference/plot.mkinfit-2.png
index a11d1680..ff8418a3 100644
--- a/docs/reference/plot.mkinfit-2.png
+++ b/docs/reference/plot.mkinfit-2.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-3.png b/docs/reference/plot.mkinfit-3.png
index c976d4b1..54f2b981 100644
--- a/docs/reference/plot.mkinfit-3.png
+++ b/docs/reference/plot.mkinfit-3.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-4.png b/docs/reference/plot.mkinfit-4.png
index c8bc00fe..7a7bfc6c 100644
--- a/docs/reference/plot.mkinfit-4.png
+++ b/docs/reference/plot.mkinfit-4.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-5.png b/docs/reference/plot.mkinfit-5.png
index 6631aa68..6a6741e7 100644
--- a/docs/reference/plot.mkinfit-5.png
+++ b/docs/reference/plot.mkinfit-5.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-6.png b/docs/reference/plot.mkinfit-6.png
index 946b20c5..c4d0b9c7 100644
--- a/docs/reference/plot.mkinfit-6.png
+++ b/docs/reference/plot.mkinfit-6.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit-7.png b/docs/reference/plot.mkinfit-7.png
index 10807ea8..802b00ef 100644
--- a/docs/reference/plot.mkinfit-7.png
+++ b/docs/reference/plot.mkinfit-7.png
Binary files differ
diff --git a/docs/reference/plot.mkinfit.html b/docs/reference/plot.mkinfit.html
index b80c672d..ff6da93e 100644
--- a/docs/reference/plot.mkinfit.html
+++ b/docs/reference/plot.mkinfit.html
@@ -74,7 +74,7 @@ observed data together with the solution of the fitted model." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/plot.mmkin-1.png b/docs/reference/plot.mmkin-1.png
index 647dfb8a..d06d683c 100644
--- a/docs/reference/plot.mmkin-1.png
+++ b/docs/reference/plot.mmkin-1.png
Binary files differ
diff --git a/docs/reference/plot.mmkin-2.png b/docs/reference/plot.mmkin-2.png
index 1bc1c9db..d3678aca 100644
--- a/docs/reference/plot.mmkin-2.png
+++ b/docs/reference/plot.mmkin-2.png
Binary files differ
diff --git a/docs/reference/plot.mmkin-3.png b/docs/reference/plot.mmkin-3.png
index 50d6ffac..f84d5782 100644
--- a/docs/reference/plot.mmkin-3.png
+++ b/docs/reference/plot.mmkin-3.png
Binary files differ
diff --git a/docs/reference/plot.mmkin-4.png b/docs/reference/plot.mmkin-4.png
index e049fa16..9919dacb 100644
--- a/docs/reference/plot.mmkin-4.png
+++ b/docs/reference/plot.mmkin-4.png
Binary files differ
diff --git a/docs/reference/plot.mmkin-5.png b/docs/reference/plot.mmkin-5.png
index 2421995b..945b863f 100644
--- a/docs/reference/plot.mmkin-5.png
+++ b/docs/reference/plot.mmkin-5.png
Binary files differ
diff --git a/docs/reference/plot.mmkin.html b/docs/reference/plot.mmkin.html
index 20f9033d..3348e050 100644
--- a/docs/reference/plot.mmkin.html
+++ b/docs/reference/plot.mmkin.html
@@ -76,7 +76,7 @@ the fit of at least one model to the same dataset is shown." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/reexports.html b/docs/reference/reexports.html
index 864c4ff9..c6d716a1 100644
--- a/docs/reference/reexports.html
+++ b/docs/reference/reexports.html
@@ -79,7 +79,7 @@ below to see their documentation.
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/sigma_twocomp-1.png b/docs/reference/sigma_twocomp-1.png
index 6e61684e..fddb86a7 100644
--- a/docs/reference/sigma_twocomp-1.png
+++ b/docs/reference/sigma_twocomp-1.png
Binary files differ
diff --git a/docs/reference/sigma_twocomp.html b/docs/reference/sigma_twocomp.html
index 397582f0..1b4e45e4 100644
--- a/docs/reference/sigma_twocomp.html
+++ b/docs/reference/sigma_twocomp.html
@@ -73,7 +73,7 @@ dependence of the measured value \(y\):" />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
diff --git a/docs/reference/summary.nlme.mmkin.html b/docs/reference/summary.nlme.mmkin.html
index d6840425..8df9011d 100644
--- a/docs/reference/summary.nlme.mmkin.html
+++ b/docs/reference/summary.nlme.mmkin.html
@@ -76,7 +76,7 @@ endpoints such as formation fractions and DT50 values. Optionally
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>
@@ -265,10 +265,10 @@ José Pinheiro and Douglas Bates for the components inherited from nlme</p>
#&gt; <span class='warning'>iteration limit reached without convergence (10)</span></div><div class='input'><span class='va'>f_nlme</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span><span class='op'>(</span><span class='va'>f_mmkin</span><span class='op'>)</span>
</div><div class='output co'>#&gt; <span class='warning'>Warning: Iteration 4, LME step: nlminb() did not converge (code = 1). PORT message: false convergence (8)</span></div><div class='input'><span class='fu'><a href='https://rdrr.io/r/base/summary.html'>summary</a></span><span class='op'>(</span><span class='va'>f_nlme</span>, data <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
</div><div class='output co'>#&gt; nlme version used for fitting: 3.1.152
-#&gt; mkin version used for pre-fitting: 1.0.3
-#&gt; R version used for fitting: 4.0.3
-#&gt; Date of fit: Mon Feb 15 13:46:13 2021
-#&gt; Date of summary: Mon Feb 15 13:46:13 2021
+#&gt; mkin version used for pre-fitting: 1.0.4
+#&gt; R version used for fitting: 4.0.4
+#&gt; Date of fit: Wed Mar 31 19:18:24 2021
+#&gt; Date of summary: Wed Mar 31 19:18:24 2021
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -278,7 +278,7 @@ José Pinheiro and Douglas Bates for the components inherited from nlme</p>
#&gt;
#&gt; Model predictions using solution type analytical
#&gt;
-#&gt; Fitted in 0.553 s using 4 iterations
+#&gt; Fitted in 0.537 s using 4 iterations
#&gt;
#&gt; Variance model: Two-component variance function
#&gt;
diff --git a/docs/reference/transform_odeparms.html b/docs/reference/transform_odeparms.html
index c3c756f6..bbaad91e 100644
--- a/docs/reference/transform_odeparms.html
+++ b/docs/reference/transform_odeparms.html
@@ -77,7 +77,7 @@ the ilr transformation is used." />
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.4</span>
</span>
</div>

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